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< h1 > I-GeneMatcher Readme< / h1 >
< p > Please follow the tutorial on how to use the I-GeneMatcher. If your video does not play you can download the video from < a href = "https://data.d4science.net/vFbH" > here< / a > .< / p >
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< source type = "video/mp4" src = "https://cdn.cloud-dev.d4science.org/i-gene/resources/tutorial.mp4" / >
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< h3 > Table description< / h3 >
< p > The following tables describe the meaning of the columns in the various data tables produced as output by the I-GeneMatcher.< / p >
< h5 > Pair of two guides importing file from CHOPCHOP< / h5 >
< table class = "table table-striped" >
< thead >
< tr >
< td > Column< / td >
< td > Description< / td >
< / tr >
< / thead >
< tbody class = "text-primary" >
< tr >
< td > Rank< / td >
< td > Rank of guide 1 as reported in CHOPCHOP< / td >
< / tr >
< tr >
< td > Match rank< / td >
< td > Rank of guide 2 as reported in CHOPCHOP< / td >
< / tr >
< tr >
< td > Distance< / td >
< td > Precise distance between the guides with the selected configuration< / td >
< / tr >
< tr >
< td > Target sequence< / td >
< td > Sequence of guide 1< / td >
< / tr >
< tr >
< td > Genomic location< / td >
< td > Position of guide 1< / td >
< / tr >
< tr >
< td > Match Genomic location< / td >
< td > Position of guide 2< / td >
< / tr >
< tr >
< td > Strand< / td >
< td > DNA strand that the guide 1 targets< / td >
< / tr >
< tr >
< td > Match Strand< / td >
< td > DNA strand that the guide 2 targets< / td >
< / tr >
< tr >
< td > GC content (%)< / td >
< td > GC content percentage of guide 1< / td >
< / tr >
< tr >
< td > Match GC content (%)< / td >
< td > GC content percentage of guide 2< / td >
< / tr >
< tr >
< td > Self-complementarity< / td >
< td > Self-complementarity value of guide 1 as reported in CHOPCHOP< / td >
< / tr >
< tr >
< td > Match Self-complementarity< / td >
< td > Self-complementarity value of guide 2 as reported in CHOPCHOP< / td >
< / tr >
< tr >
< td > MM0-3< / td >
< td > Targets containing 0 to 3 mismatches for guide 1< / td >
< / tr >
< tr >
< td > Match MM0-3< / td >
< td > Targets containing 0 to 3 mismatches for guide 2< / td >
< / tr >
< tr >
< td > Efficiency< / td >
< td > Efficiency value of guide 1 as reported in CHOPCHOP< / td >
< / tr >
< tr >
< td > Match Efficiency< / td >
< td > Efficiency value of guide 2 as reported in CHOPCHOP< / td >
< / tr >
< / tbody >
< / table >
< h5 > Pair of two guides importing file from Crisprscan< / h5 >
< table class = "table table-striped" >
< thead >
< tr >
< td > Column< / td >
< td > Description< / td >
< / tr >
< / thead >
< tbody class = "text-primary" >
< tr >
< td > Rank< / td >
< td > Rank of guide 1 as reported in crisprscan< / td >
< / tr >
< tr >
< td > Match rank< / td >
< td > Rank of guide 2 as reported in crisprscan< / td >
< / tr >
< tr >
< td > Distance< / td >
< td > Precise distance between the guides with the selected configuration< / td >
< / tr >
< tr >
< td > Name< / td >
< td > Targeted chromosome of guide 1< / td >
< / tr >
< tr >
< td > Match Name< / td >
< td > Targeted chromosome of guide 2< / td >
< / tr >
< tr >
< td > Start< / td >
< td > Starting genomic position of guide 1< / td >
< / tr >
< tr >
< td > Match Start< / td >
< td > Starting genomic position of guide 2< / td >
< / tr >
< tr >
< td > End< / td >
< td > Ending genomic position of guide 1< / td >
< / tr >
< tr >
< td > Match End< / td >
< td > Ending genomic position of guide 2< / td >
< / tr >
< tr >
< td > Strand< / td >
< td > DNA strand that the guide 1 targets< / td >
< / tr >
< tr >
< td > Match Strand< / td >
< td > DNA strand that the guide 2 targets< / td >
< / tr >
< tr >
< td > Type< / td >
< td > 20 nucleotides following the type of PAM for guide 1< / td >
< / tr >
< tr >
< td > Match Type< / td >
< td > 20 nucleotides following the type of PAM for guide 2< / td >
< / tr >
< tr >
< td > Seq< / td >
< td > Targeting sequence containing the PAM sequence of guide 1< / td >
< / tr >
< tr >
< td > Match Seq< / td >
< td > Targeting sequence containing the PAM sequence of guide 2< / td >
< / tr >
< tr >
< td > Sgrna_seq< / td >
< td > Sequence of guide 1< / td >
< / tr >
< tr >
< td > Match Sgrna_seq< / td >
< td > Sequence of guide 2< / td >
< / tr >
< tr >
< td > Promoter< / td >
< td > If selected during the crisprscan research< / td >
< / tr >
< tr >
< td > Match Promoter< / td >
< td > If selected during the crisprscan research< / td >
< / tr >
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< tr >
< td colspan = "10" > Remaining values as reported by crisprscan. Prefix "Match" always indicates the corresponding values of guide 2.< / td >
< / tr >
< / tfoot >
< / table >
< h5 > Restriction enzyme importing file from CHOPCHOP< / h5 >
< table class = "table table-striped" >
< thead >
< tr >
< td > Column< / td >
< td > Description< / td >
< / tr >
< / thead >
< tbody class = "text-primary" >
< tr >
< td > RE sequence< / td >
< td > Restriction site of the selected restriction enzyme< / td >
< / tr >
< tr >
< td > RE index< / td >
< td > Position of the restriction site< / td >
< / tr >
< tr >
< td > RE strand< / td >
< td > 5'- 3'< / td >
< / tr >
< tr >
< td > Distance< / td >
< td > Precise distance from the guide< / td >
< / tr >
< tr >
< td > Rank< / td >
< td > Rank of the guide as reported in CHOPCHOP< / td >
< / tr >
< tr >
< td > Target sequence< / td >
< td > Sequence of the guide< / td >
< / tr >
< tr >
< td > Genomic location< / td >
< td > Position of the guide< / td >
< / tr >
< tr >
< td > Strand< / td >
< td > DNA strand that the guide targets< / td >
< / tr >
< tr >
< td > GC content (%)< / td >
< td > GC content percentage of the guide< / td >
< / tr >
< tr >
< td > Self-complementarity< / td >
< td > Self-complementarity value of the guide as reported in CHOPCHOP< / td >
< / tr >
< tr >
< td > MM0-3< / td >
< td > Targets containing 0 to 3 mismatches< / td >
< / tr >
< tr >
< td > Efficiency< / td >
< td > Efficiency value as reported in CHOPCHOP< / td >
< / tr >
< / tbody >
< / table >
< h5 > Restriction enzyme importing file from Crisprscan< / h5 >
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< thead >
< tr >
< td > Column< / td >
< td > Description< / td >
< / tr >
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< tr >
< td > RE sequence< / td >
< td > Restriction site of the selected restriction enzyme< / td >
< / tr >
< tr >
< td > RE index< / td >
< td > Position of the restriction site< / td >
< / tr >
< tr >
< td > RE strand< / td >
< td > 5' - 3'< / td >
< / tr >
< tr >
< td > Distance< / td >
< td > Precise distance from the guide< / td >
< / tr >
< tr >
< td > Rank< / td >
< td > Rank of the guide as reported in crisprscan< / td >
< / tr >
< tr >
< td > Name< / td >
< td > Targeted chromosome< / td >
< / tr >
< tr >
< td > Start< / td >
< td > Starting genomic position of the guide< / td >
< / tr >
< tr >
< td > End< / td >
< td > Ending genomic position of the guide< / td >
< / tr >
< tr >
< td > Strand< / td >
< td > DNA strand that the guide targets< / td >
< / tr >
< tr >
< td > Type< / td >
< td > 20 nucleotides following the type of PAM< / td >
< / tr >
< tr >
< td > Seq< / td >
< td > Targeting sequence containing the PAM sequence< / td >
< / tr >
< tr >
< td > Sgrna_seq< / td >
< td > Sequence of the guide< / td >
< / tr >
< tr >
< td > Promoter< / td >
< td > If selected during the crisprscan research< / td >
< / tr >
< / tbody >
< tfoot >
< tr >
< td colspan = "10" > Remaining values as reported by crisprscan.< / td >
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